This directory contains the May 2005 Zv5 assembly of the zebrafish genome 
(UCSC version danRer3) obtained from the Wellcome Trust Sanger Institute 
and produced by a collaboration between the Wellcome Trust Sanger Institute 
in Cambridge, UK, the Max Planck Institute for Developmental Biology in 
Tuebingen, Germany, the Netherlands Institute for Developmental Biology 
(Hubrecht Laboratory), Utrecht, The Netherlands and Yi Zhou and Leonard 
Zon from the Children's Hospital in Boston, Massachusetts.

Files included in this directory:

  - chr*.fa.gz: gzip compressed FASTA sequence of each chromosome.
    Repeats (from RepeatMasker and Tandem Repeat Finder) 
    are in lower case while non-repeating sequence is in upper case.
    RepeatMasker open-3.0 version with RepBase libraries:
    RepBase Update 9.04, RM database version 20040702 with the addition of
    the zebunc.ref (Zebrafish Unclassified) repeats library from RepBase 9.06.
  - scaffold*.fa.gz: gzip compressed FASTA sequence of individual scaffolds 
    for chrNA and chrUn. These are repeatmasked as described above.

  - md5sum.txt - Checksum file.

If you plan to download a large file or multiple files from this 
directory, we recommend you use ftp rather than downloading the files 
via our website. To do so, ftp to, then go to 
the directory goldenPath/danRer3/chromosomes. To download multiple files, 
use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory)

The Zv5 zebrafish sequence data were produced by the Zebrafish Sequencing 
Group at the Sanger Institute and can be obtained directly from All sequence data 
are made available before scientific publication with the understanding that 
the groups involved in generating the data intend to publish the initial 
large-scale analyses of the dataset. This will include a summary detailing 
the data that have beeen generated and key features of the genome identified 
from genomic assembly and clone mapping/sequencing. Any redistribution of 
the data should carry this notice. 

      Name                    Last modified      Size  Description
Parent Directory - chr1.fa.gz 2005-08-04 14:56 17M chr2.fa.gz 2005-08-04 14:57 15M chr3.fa.gz 2005-08-04 14:57 14M chr4.fa.gz 2005-08-04 14:57 10M chr5.fa.gz 2005-08-04 14:57 22M chr6.fa.gz 2005-08-04 14:57 9.9M chr7.fa.gz 2005-08-04 14:57 18M chr8.fa.gz 2005-08-04 14:57 13M chr9.fa.gz 2005-08-04 14:57 13M chr10.fa.gz 2005-08-04 14:56 12M chr11.fa.gz 2005-08-04 14:56 13M chr12.fa.gz 2005-08-04 14:56 11M chr13.fa.gz 2005-08-04 14:56 14M chr14.fa.gz 2005-08-04 14:56 21M chr15.fa.gz 2005-08-04 14:56 14M chr16.fa.gz 2005-08-04 14:57 16M chr17.fa.gz 2005-08-04 14:57 15M chr18.fa.gz 2005-08-04 14:57 16M chr19.fa.gz 2005-08-04 14:57 22M chr20.fa.gz 2005-08-04 14:57 17M chr21.fa.gz 2005-08-04 14:57 12M chr22.fa.gz 2005-08-04 14:57 15M chr23.fa.gz 2005-08-04 14:57 17M chr24.fa.gz 2005-08-04 14:57 10M chr25.fa.gz 2005-08-04 14:57 8.7M chrM.fa.gz 2005-08-04 14:57 5.3K chrNA.fa.gz 2005-08-04 14:57 72M chrUn.fa.gz 2005-08-04 14:57 54M md5sum.txt 2005-08-04 15:36 1.3K scaffoldNA.fa.gz 2005-08-04 14:59 72M scaffoldUn.fa.gz 2005-08-04 14:59 54M